data_0RC
#

_chem_comp.id                                   0RC
_chem_comp.name                                 "5'-O-[(S)-{[(R)-(2-aminoethyl)(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C11 H20 N4 O10 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2007-08-13
_chem_comp.pdbx_modified_date                   2019-08-02
_chem_comp.pdbx_ambiguous_flag                  ?
_chem_comp.pdbx_release_status                  REL
_chem_comp.pdbx_replaced_by                     ?
_chem_comp.pdbx_replaces                        ?
_chem_comp.formula_weight                       430.245
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    0RC
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  N
_chem_comp.pdbx_ideal_coordinates_details       Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       2QQX
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
loop_
_chem_comp_atom.comp_id
_chem_comp_atom.atom_id
_chem_comp_atom.alt_atom_id
_chem_comp_atom.type_symbol
_chem_comp_atom.charge
_chem_comp_atom.pdbx_align
_chem_comp_atom.pdbx_aromatic_flag
_chem_comp_atom.pdbx_leaving_atom_flag
_chem_comp_atom.pdbx_stereo_config
_chem_comp_atom.model_Cartn_x
_chem_comp_atom.model_Cartn_y
_chem_comp_atom.model_Cartn_z
_chem_comp_atom.pdbx_model_Cartn_x_ideal
_chem_comp_atom.pdbx_model_Cartn_y_ideal
_chem_comp_atom.pdbx_model_Cartn_z_ideal
_chem_comp_atom.pdbx_component_atom_id
_chem_comp_atom.pdbx_component_comp_id
_chem_comp_atom.pdbx_ordinal
0RC  O3B     O3B     O  0  1  N  N  N  -22.562   -8.435  23.343  -4.458  -1.407  -1.349  O3B     0RC   1  
0RC  PB      PB      P  0  1  N  N  R  -21.604   -9.131  22.894  -4.705  -0.514  -0.195  PB      0RC   2  
0RC  O2B     O2B     O  0  1  N  N  N  -21.085   -9.936  23.752  -5.825   0.574  -0.588  O2B     0RC   3  
0RC  C1B     C1B     C  0  1  N  N  N  -22.136  -10.157  21.470  -5.288  -1.501   1.223  C1B     0RC   4  
0RC  C14     C14     C  0  1  N  N  N  -21.055  -11.063  20.824  -6.515  -2.315   0.807  C14     0RC   5  
0RC  N15     N15     N  0  1  N  N  N  -21.400  -11.866  19.729  -6.984  -3.111   1.950  N15     0RC   6  
0RC  O3A     O3A     O  0  1  N  N  N  -20.455   -8.182  22.429  -3.340   0.241   0.202  O3A     0RC   7  
0RC  PA      PA      P  0  1  N  N  S  -19.281   -7.410  23.147  -2.346   1.238  -0.579  PA      0RC   8  
0RC  O1A     O1A     O  0  1  N  N  N  -19.999   -6.104  23.652  -2.191   0.785  -1.979  O1A     0RC   9  
0RC  O2A     O2A     O  0  1  N  N  N  -18.723   -8.189  24.081  -2.958   2.728  -0.562  O2A     0RC  10  
0RC  "O5'"   "O5'"   O  0  1  N  N  N  -18.653   -6.792  22.177  -0.909   1.241   0.147  "O5'"   0RC  11  
0RC  "C5'"   "C5'"   C  0  1  N  N  N  -18.088   -7.453  21.036   0.222   1.947  -0.367  "C5'"   0RC  12  
0RC  "C4'"   "C4'"   C  0  1  N  N  R  -16.611   -7.434  20.709   1.419   1.739   0.562  "C4'"   0RC  13  
0RC  "C3'"   "C3'"   C  0  1  N  N  S  -15.509   -7.447  21.828   2.618   2.593   0.094  "C3'"   0RC  14  
0RC  "O3'"   "O3'"   O  0  1  N  N  N  -14.486   -8.215  21.378   2.699   3.801   0.854  "O3'"   0RC  15  
0RC  "C2'"   "C2'"   C  0  1  N  N  R  -15.261   -5.925  21.960   3.847   1.698   0.367  "C2'"   0RC  16  
0RC  "O2'"   "O2'"   O  0  1  N  N  N  -14.174   -5.508  22.525   4.725   2.325   1.304  "O2'"   0RC  17  
0RC  "O4'"   "O4'"   O  0  1  N  N  N  -16.382   -6.409  19.891   1.886   0.374   0.482  "O4'"   0RC  18  
0RC  "C1'"   "C1'"   C  0  1  N  N  R  -15.623   -5.564  20.470   3.246   0.408   0.968  "C1'"   0RC  19  
0RC  N1      N1      N  0  1  N  N  N  -15.980   -4.196  20.371   3.984  -0.766   0.498  N1      0RC  20  
0RC  C6      C6      C  0  1  N  N  N  -17.041   -3.661  21.030   4.634  -1.562   1.393  C6      0RC  21  
0RC  C5      C5      C  0  1  N  N  N  -17.393   -2.315  20.944   5.314  -2.644   0.946  C5      0RC  22  
0RC  C4      C4      C  0  1  N  N  N  -16.617   -1.479  20.123   5.329  -2.918  -0.437  C4      0RC  23  
0RC  N4      N4      N  0  1  N  N  N  -16.858   -0.239  19.982   6.011  -4.012  -0.918  N4      0RC  24  
0RC  N3      N3      N  0  1  N  N  N  -15.557   -2.077  19.476   4.681  -2.116  -1.271  N3      0RC  25  
0RC  C2      C2      C  0  1  N  N  N  -15.231   -3.371  19.564   4.013  -1.057  -0.816  C2      0RC  26  
0RC  O2      O2      O  0  1  N  N  N  -14.336   -3.672  18.968   3.425  -0.334  -1.604  O2      0RC  27  
0RC  HO2B    HO2B    H  0  0  N  N  N  -20.957  -10.788  23.351  -6.038   1.194   0.123  HO2B    0RC  28  
0RC  H1B1    1H1B    H  0  0  N  N  N  -22.492   -9.469  20.689  -4.496  -2.177   1.545  H1B1    0RC  29  
0RC  H1B2    2H1B    H  0  0  N  N  N  -22.895  -10.845  21.870  -5.555  -0.836   2.044  H1B2    0RC  30  
0RC  H141    1H14    H  0  0  N  N  N  -20.713  -11.748  21.614  -7.307  -1.640   0.485  H141    0RC  31  
0RC  H142    2H14    H  0  0  N  N  N  -20.321  -10.353  20.414  -6.248  -2.981  -0.014  H142    0RC  32  
0RC  H151    1H15    H  0  0  N  N  N  -21.482  -11.297  18.911  -7.177  -2.522   2.746  H151    0RC  33  
0RC  H152    2H15    H  0  0  N  N  N  -20.691  -12.556  19.585  -7.795  -3.658   1.701  H152    0RC  34  
0RC  HO2A    HO2A    H  0  0  N  N  N  -18.591   -9.061  23.729  -3.087   3.090   0.325  HO2A    0RC  35  
0RC  "H5'1"  "1H5'"  H  0  0  N  N  N  -18.579   -6.992  20.166   0.463   1.571  -1.362  "H5'1"  0RC  36  
0RC  "H5'2"  "2H5'"  H  0  0  N  N  N  -18.249   -8.512  21.287  -0.011   3.010  -0.428  "H5'2"  0RC  37  
0RC  "H4'"   "H4'"   H  0  1  N  N  N  -16.473   -8.440  20.287   1.151   1.991   1.588  "H4'"   0RC  38  
0RC  "H3'"   "H3'"   H  0  1  N  N  N  -15.728   -7.884  22.813   2.537   2.816  -0.970  "H3'"   0RC  39  
0RC  "HO3'"  "HO3'"  H  0  0  N  N  N  -14.607   -8.395  20.453   3.435   4.376   0.602  "HO3'"  0RC  40  
0RC  "H2'"   "H2'"   H  0  1  N  N  N  -15.835   -5.374  22.719   4.374   1.479  -0.561  "H2'"   0RC  41  
0RC  "HO2'"  "HO2'"  H  0  0  N  N  N  -13.495   -5.406  21.869   5.084   3.170   1.002  "HO2'"  0RC  42  
0RC  "H1'"   "H1'"   H  0  1  N  N  N  -14.719   -5.671  19.852   3.259   0.454   2.057  "H1'"   0RC  43  
0RC  H6      H6      H  0  1  N  N  N  -17.641   -4.310  21.651   4.608  -1.331   2.448  H6      0RC  44  
0RC  H5      H5      H  0  1  N  N  N  -18.238   -1.926  21.493   5.836  -3.288   1.638  H5      0RC  45  
0RC  HN41    1HN4    H  0  0  N  N  N  -17.658    0.035  20.516   6.483  -4.597  -0.306  HN41    0RC  46  
0RC  HN42    2HN4    H  0  0  N  N  N  -16.319    0.381  19.412   6.019  -4.198  -1.870  HN42    0RC  47  
#   #
loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_aromatic_flag
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_ordinal
0RC  O2     C2      DOUB  N  N   1  
0RC  N3     C2      SING  N  N   2  
0RC  N3     C4      DOUB  N  N   3  
0RC  C2     N1      SING  N  N   4  
0RC  N15    C14     SING  N  N   5  
0RC  "O4'"  "C1'"   SING  N  N   6  
0RC  "O4'"  "C4'"   SING  N  N   7  
0RC  N4     C4      SING  N  N   8  
0RC  C4     C5      SING  N  N   9  
0RC  N1     "C1'"   SING  N  N  10  
0RC  N1     C6      SING  N  N  11  
0RC  "C1'"  "C2'"   SING  N  N  12  
0RC  "C4'"  "C5'"   SING  N  N  13  
0RC  "C4'"  "C3'"   SING  N  N  14  
0RC  C14    C1B     SING  N  N  15  
0RC  C5     C6      DOUB  N  N  16  
0RC  "C5'"  "O5'"   SING  N  N  17  
0RC  "O3'"  "C3'"   SING  N  N  18  
0RC  C1B    PB      SING  N  N  19  
0RC  "C3'"  "C2'"   SING  N  N  20  
0RC  "C2'"  "O2'"   SING  N  N  21  
0RC  "O5'"  PA      SING  N  N  22  
0RC  O3A    PB      SING  N  N  23  
0RC  O3A    PA      SING  N  N  24  
0RC  PB     O3B     DOUB  N  N  25  
0RC  PB     O2B     SING  N  N  26  
0RC  PA     O1A     DOUB  N  N  27  
0RC  PA     O2A     SING  N  N  28  
0RC  O2B    HO2B    SING  N  N  29  
0RC  C1B    H1B1    SING  N  N  30  
0RC  C1B    H1B2    SING  N  N  31  
0RC  C14    H141    SING  N  N  32  
0RC  C14    H142    SING  N  N  33  
0RC  N15    H151    SING  N  N  34  
0RC  N15    H152    SING  N  N  35  
0RC  O2A    HO2A    SING  N  N  36  
0RC  "C5'"  "H5'1"  SING  N  N  37  
0RC  "C5'"  "H5'2"  SING  N  N  38  
0RC  "C4'"  "H4'"   SING  N  N  39  
0RC  "C3'"  "H3'"   SING  N  N  40  
0RC  "O3'"  "HO3'"  SING  N  N  41  
0RC  "C2'"  "H2'"   SING  N  N  42  
0RC  "O2'"  "HO2'"  SING  N  N  43  
0RC  "C1'"  "H1'"   SING  N  N  44  
0RC  C6     H6      SING  N  N  45  
0RC  C5     H5      SING  N  N  46  
0RC  N4     HN41    SING  N  N  47  
0RC  N4     HN42    SING  N  N  48  
#   #
loop_
_pdbx_chem_comp_descriptor.comp_id
_pdbx_chem_comp_descriptor.type
_pdbx_chem_comp_descriptor.program
_pdbx_chem_comp_descriptor.program_version
_pdbx_chem_comp_descriptor.descriptor
0RC  SMILES            ACDLabs               10.04  "O=P(O)(OP(=O)(O)OCC2OC(N1C(=O)N=C(N)C=C1)C(O)C2O)CCN"  
0RC  SMILES_CANONICAL  CACTVS                3.341  "NCC[P@](O)(=O)O[P@](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)N2C=CC(=NC2=O)N"  
0RC  SMILES            CACTVS                3.341  "NCC[P](O)(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)N2C=CC(=NC2=O)N"  
0RC  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@](=O)(O)O[P@@](=O)(CCN)O)O)O"  
0RC  SMILES            "OpenEye OEToolkits"  1.5.0  "C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)OP(=O)(CCN)O)O)O"  
0RC  InChI             InChI                 1.03   "InChI=1S/C11H20N4O10P2/c12-2-4-26(19,20)25-27(21,22)23-5-6-8(16)9(17)10(24-6)15-3-1-7(13)14-11(15)18/h1,3,6,8-10,16-17H,2,4-5,12H2,(H,19,20)(H,21,22)(H2,13,14,18)/t6-,8-,9-,10-/m1/s1"  
0RC  InChIKey          InChI                 1.03   FBADRUOBFLBKJQ-PEBGCTIMSA-N  
#   #
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
0RC  "SYSTEMATIC NAME"  ACDLabs               10.04  "5'-O-[(S)-{[(R)-(2-aminoethyl)(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine"  
0RC  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "2-aminoethyl-[[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-phosphinic acid"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
0RC  "Create component"   2007-08-13  RCSB  
0RC  "Modify descriptor"  2011-06-04  RCSB  
0RC  "Initial release"    2019-08-07  RCSB  
##
